A regionprops table widget plugin for napari
From the menu
Tools > Measurement > Regionprops (nsr) you can open a dialog where you can choose an intensity image, a corresponding label image and the features you want to measure:
If you want to interface with the labels and see which table row corresponds to which labeled object, use the label picker and
show selected checkbox.
If you closed a table and want to reopen it, you can use the menu
Tools > Measurements > Show table (nsr) to reopen it.
You just need to select the labels layer the properties are associated with.
For visualizing measurements with different grey values, as parametric images, you can double-click table headers.
You can also control the tables programmatically. See this example notebook for details.
The user can select categories of features for feature extraction in the user interface. These categories contain measurements from the scikit-image regionprops list of measurements library:
extra_propertiesimplementation using numpy)
There are other napari plugins with similar functionality for extracting features:
Furthermore, there are plugins for postprocessing extracted measurements
You can install
napari-skimage-regionprops via pip:
pip install napari-skimage-regionprops
Or if you plan to develop it:
git clone https://github.com/haesleinhuepf/napari-skimage-regionprops cd napari-skimage-regionprops pip install -e .
If there is an error message suggesting that git is not installed, run
conda install git.
Contributions are very welcome. Tests can be run with tox, please ensure
the coverage at least stays the same before you submit a pull request.
Distributed under the terms of the BSD-3 license,
"napari-skimage-regionprops" is free and open source software
- 24 September 2022
- 07 June 2021
- Information not submitted
- Stars: 24
- Forks: 5
- Issues + PRs: 8